def renderLabelMap(self):
# Initializes a vtkMRMLScalarVolumeNode for the SegmentCAD Output and copies ijkToRAS matrix and Image data from nodeLabel
ijkToRASMatrix = vtk.vtkMatrix4x4()
self.volumePre.GetIJKToRASMatrix(ijkToRASMatrix)
self.SegmentCADLabelMap.SetIJKToRASMatrix(ijkToRASMatrix)
SegmentCADLabelMapImageData = vtk.vtkImageData()
SegmentCADLabelMapImageData.DeepCopy(self.volumePre.GetImageData())
SegmentCADLabelMapPointData = SegmentCADLabelMapImageData.GetPointData()
# Numpy array is converted from signed int16 to signed vtkShortArray
scalarArray = vtk.vtkShortArray()
dims1D = SegmentCADLabelMapPointData.GetScalars().GetSize()
self.nodeArraySegmentCADLabel = self.nodeArraySegmentCADLabel.reshape(dims1D, order='C')
scalarArray = vtk.util.numpy_support.numpy_to_vtk(self.nodeArraySegmentCADLabel)
# PointData() of SegmentCAD label output pointed to new vtkShortArray for scalar values
SegmentCADLabelMapImageData.SetScalarTypeToShort()
SegmentCADLabelMapPointData.SetScalars(scalarArray)
SegmentCADLabelMapPointData.Update()
SegmentCADLabelMapImageData.Update()
self.SegmentCADLabelMap.SetAndObserveImageData(SegmentCADLabelMapImageData)
# Corresponding display node and color table nodes created for SegmentCAD label Output
self.SegmentCADLabelMapDisplay = slicer.vtkMRMLLabelMapVolumeDisplayNode()
self.SegmentCADLabelMapDisplay.SetScene(slicer.mrmlScene)
self.SegmentCADLabelMapDisplay.SetAndObserveColorNodeID('vtkMRMLColorTableNodeFileGenericColors.txt')
self.SegmentCADLabelMapDisplay.SetInputImageData(SegmentCADLabelMapImageData)
self.SegmentCADLabelMapDisplay.UpdateImageDataPipeline()
slicer.mrmlScene.AddNode(self.SegmentCADLabelMapDisplay)
self.SegmentCADLabelMap.SetAndObserveDisplayNodeID(self.SegmentCADLabelMapDisplay.GetID())
self.SegmentCADLabelMapDisplay.UpdateScene(slicer.mrmlScene)
def renderArray(self, labelNodeArray, labelNode, imageNode, shape=(512,512,88), spacing=(1,1,1), origin=(0,0,0)):
ras2ijk = vtk.vtkMatrix4x4()
ijk2ras = vtk.vtkMatrix4x4()
imageNode.GetRASToIJKMatrix(ras2ijk)
imageNode.GetIJKToRASMatrix(ijk2ras)
labelNode.SetRASToIJKMatrix(ras2ijk)
labelNode.SetIJKToRASMatrix(ijk2ras)
labelNodeImageData = vtk.vtkImageData()
labelNodeImageData.DeepCopy(imageNode.GetImageData())
#labelNodeImageData.AllocateScalars(4,1)
#labelNodeImageData.SetDimensions(shape)
labelNodePointData = labelNodeImageData.GetPointData()
"""
# Numpy array is converted from signed int16 to signed vtkShortArray
scalarArray = vtk.vtkShortArray()
dims1D = labelNodeArray.size #labelNodePointData.GetScalars().GetSize()
flatArray = labelNodeArray.reshape(dims1D, order='C')
scalarArray = vtk.util.numpy_support.numpy_to_vtk(flatArray)
"""
scalarArray = vtk.vtkShortArray()
dims1D = labelNodePointData.GetScalars().GetSize() #labelNodePointData.GetScalars().GetSize()
flatArray = labelNodeArray.reshape(dims1D, order='F')
scalarArray = vtk.util.numpy_support.numpy_to_vtk(flatArray) # VTK Unsigned Char Array =3, short =4, uint = 7
labelNodePointData.SetScalars(scalarArray)
labelNodeImageData.Modified()
slicer.mrmlScene.AddNode(labelNode)
labelNode.SetAndObserveImageData(labelNodeImageData)
labelNode.SetSpacing(spacing)
labelNode.SetOrigin(origin)
return labelNode
def renderLabelMap(self):
# Initializes a vtkMRMLScalarVolumeNode for the SegmentCAD Output and copies ijkToRAS matrix and Image data from nodeLabel
ras2ijk = vtk.vtkMatrix4x4()
ijk2ras = vtk.vtkMatrix4x4()
self.nodePre.GetRASToIJKMatrix(ras2ijk)
self.nodePre.GetIJKToRASMatrix(ijk2ras)
self.SegmentCADLabelMap.SetRASToIJKMatrix(ras2ijk)
self.SegmentCADLabelMap.SetIJKToRASMatrix(ijk2ras)
SegmentCADLabelMapImageData = vtk.vtkImageData()
SegmentCADLabelMapImageData.DeepCopy(self.nodePre.GetImageData())
SegmentCADLabelMapPointData = SegmentCADLabelMapImageData.GetPointData()
# Numpy array is converted from signed int16 to signed vtkShortArray
scalarArray = vtk.vtkShortArray()
dims1D = SegmentCADLabelMapPointData.GetScalars().GetSize()
self.nodeArraySegmentCADLabel = self.nodeArraySegmentCADLabel.reshape(dims1D, order='C') #use a flattening function
scalarArray = vtk.util.numpy_support.numpy_to_vtk(self.nodeArraySegmentCADLabel)
# PointData() of SegmentCAD label output pointed to new vtkShortArray for scalar values
if vtk.VTK_MAJOR_VERSION <= 5:
#SegmentCADLabelMapImageData.SetScalarTypeToShort()
SegmentCADLabelMapPointData.SetScalars(scalarArray)
SegmentCADLabelMapPointData.Update()
else:
#SegmentCADLabelMapImageData.SetScalarType(4)
SegmentCADLabelMapPointData.SetScalars(scalarArray)
SegmentCADLabelMapImageData.Modified()
self.SegmentCADLabelMap.SetAndObserveImageData(SegmentCADLabelMapImageData)
# Corresponding display node and color table nodes created for SegmentCAD label Output
self.SegmentCADLabelMapDisplay = slicer.vtkMRMLLabelMapVolumeDisplayNode()
self.SegmentCADLabelMapDisplay.SetScene(slicer.mrmlScene)
self.SegmentCADLabelMapDisplay.SetAndObserveColorNodeID('vtkMRMLColorTableNodeFileGenericColors.txt')
if vtk.VTK_MAJOR_VERSION <= 5:
self.SegmentCADLabelMapDisplay.SetInputImageData(self.SegmentCADLabelMap.GetImageData())
else:
self.SegmentCADLabelMapDisplay.SetInputImageDataConnection(self.SegmentCADLabelMap.GetImageDataConnection())
self.SegmentCADLabelMapDisplay.UpdateImageDataPipeline()
slicer.mrmlScene.AddNode(self.SegmentCADLabelMapDisplay)
self.SegmentCADLabelMap.SetAndObserveDisplayNodeID(self.SegmentCADLabelMapDisplay.GetID())
self.SegmentCADLabelMapDisplay.UpdateScene(slicer.mrmlScene)
#red_logic = slicer.app.layoutManager().sliceWidget("Red").sliceLogic()
#red_logic.GetSliceCompositeNode().SetLabelVolumeID(self.SegmentCADLabelMap.GetID())
#yellow_logic = slicer.app.layoutManager().sliceWidget("Yellow").sliceLogic()
#yellow_logic.GetSliceCompositeNode().SetLabelVolumeID(self.SegmentCADLabelMap.GetID())
#green_logic = slicer.app.layoutManager().sliceWidget("Green").sliceLogic()
#green_logic.GetSliceCompositeNode().SetLabelVolumeID(self.SegmentCADLabelMap.GetID())
appLogic = slicer.app.applicationLogic()
selectionNode = appLogic.GetSelectionNode()
#selectionNode.SetReferenceActiveVolumeID(self.nodePre.GetID())
selectionNode.SetReferenceActiveLabelVolumeID(self.SegmentCADLabelMap.GetID())
#selectionNode.SetReferenceSecondaryVolumeID(self.node1.GetID())
appLogic.PropagateVolumeSelection()
def renderLabelMap(self):
# Initializes a vtkMRMLScalarVolumeNode for the SegmentCAD Output and copies ijkToRAS matrix and Image data from nodeLabel
ras2ijk = vtk.vtkMatrix4x4()
ijk2ras = vtk.vtkMatrix4x4()
self.nodePre.GetRASToIJKMatrix(ras2ijk)
self.nodePre.GetIJKToRASMatrix(ijk2ras)
self.SegmentCADLabelMap.SetRASToIJKMatrix(ras2ijk)
self.SegmentCADLabelMap.SetIJKToRASMatrix(ijk2ras)
SegmentCADLabelMapImageData = vtk.vtkImageData()
SegmentCADLabelMapImageData.DeepCopy(self.nodePre.GetImageData())
SegmentCADLabelMapPointData = SegmentCADLabelMapImageData.GetPointData(
)
# Numpy array is converted from signed int16 to signed vtkShortArray
scalarArray = vtk.vtkShortArray()
dims1D = SegmentCADLabelMapPointData.GetScalars().GetSize()
self.nodeArraySegmentCADLabel = self.nodeArraySegmentCADLabel.reshape(
dims1D, order='C') #use a flattening function
scalarArray = vtk.util.numpy_support.numpy_to_vtk(
self.nodeArraySegmentCADLabel)
# PointData() of SegmentCAD label output pointed to new vtkShortArray for scalar values
if vtk.VTK_MAJOR_VERSION <= 5:
#SegmentCADLabelMapImageData.SetScalarTypeToShort()
SegmentCADLabelMapPointData.SetScalars(scalarArray)
SegmentCADLabelMapPointData.Update()
else:
#SegmentCADLabelMapImageData.SetScalarType(4)
SegmentCADLabelMapPointData.SetScalars(scalarArray)
SegmentCADLabelMapImageData.Modified()
self.SegmentCADLabelMap.SetAndObserveImageData(
SegmentCADLabelMapImageData)
# Corresponding display node and color table nodes created for SegmentCAD label Output
self.SegmentCADLabelMapDisplay = slicer.vtkMRMLLabelMapVolumeDisplayNode(
)
self.SegmentCADLabelMapDisplay.SetScene(slicer.mrmlScene)
self.SegmentCADLabelMapDisplay.SetAndObserveColorNodeID(
'vtkMRMLColorTableNodeFileGenericColors.txt')
if vtk.VTK_MAJOR_VERSION <= 5:
self.SegmentCADLabelMapDisplay.SetInputImageData(
self.SegmentCADLabelMap.GetImageData())
else:
self.SegmentCADLabelMapDisplay.SetInputImageDataConnection(
self.SegmentCADLabelMap.GetImageDataConnection())
self.SegmentCADLabelMapDisplay.UpdateImageDataPipeline()
slicer.mrmlScene.AddNode(self.SegmentCADLabelMapDisplay)
self.SegmentCADLabelMap.SetAndObserveDisplayNodeID(
self.SegmentCADLabelMapDisplay.GetID())
self.SegmentCADLabelMapDisplay.UpdateScene(slicer.mrmlScene)
#red_logic = slicer.app.layoutManager().sliceWidget("Red").sliceLogic()
#red_logic.GetSliceCompositeNode().SetLabelVolumeID(self.SegmentCADLabelMap.GetID())
#yellow_logic = slicer.app.layoutManager().sliceWidget("Yellow").sliceLogic()
#yellow_logic.GetSliceCompositeNode().SetLabelVolumeID(self.SegmentCADLabelMap.GetID())
#green_logic = slicer.app.layoutManager().sliceWidget("Green").sliceLogic()
#green_logic.GetSliceCompositeNode().SetLabelVolumeID(self.SegmentCADLabelMap.GetID())
appLogic = slicer.app.applicationLogic()
selectionNode = appLogic.GetSelectionNode()
#selectionNode.SetReferenceActiveVolumeID(self.nodePre.GetID())
selectionNode.SetReferenceActiveLabelVolumeID(
self.SegmentCADLabelMap.GetID())
#selectionNode.SetReferenceSecondaryVolumeID(self.node1.GetID())
appLogic.PropagateVolumeSelection()
